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For: Fang C, Li Z, Xu D, Shang Y. MUFold-SSW: a new web server for predicting protein secondary structures, torsion angles and turns. Bioinformatics 2019;36:1293-1295. [PMID: 31532508 PMCID: PMC8489430 DOI: 10.1093/bioinformatics/btz712] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2019] [Revised: 09/11/2019] [Accepted: 09/13/2019] [Indexed: 01/31/2023]  Open
Number Cited by Other Article(s)
1
Zhang J, Qian J, Zou Q, Zhou F, Kurgan L. Recent Advances in Computational Prediction of Secondary and Supersecondary Structures from Protein Sequences. Methods Mol Biol 2025;2870:1-19. [PMID: 39543027 DOI: 10.1007/978-1-0716-4213-9_1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/17/2024]
2
Jiang Y, Wang R, Feng J, Jin J, Liang S, Li Z, Yu Y, Ma A, Su R, Zou Q, Ma Q, Wei L. Explainable Deep Hypergraph Learning Modeling the Peptide Secondary Structure Prediction. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2023;10:e2206151. [PMID: 36794291 PMCID: PMC10104664 DOI: 10.1002/advs.202206151] [Citation(s) in RCA: 33] [Impact Index Per Article: 16.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 10/24/2022] [Revised: 01/20/2023] [Indexed: 06/18/2023]
3
Gogoi CR, Rahman A, Saikia B, Baruah A. Protein Dihedral Angle Prediction: The State of the Art. ChemistrySelect 2023. [DOI: 10.1002/slct.202203427] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023]
4
Ismi DP, Pulungan R, Afiahayati. Deep learning for protein secondary structure prediction: Pre and post-AlphaFold. Comput Struct Biotechnol J 2022;20:6271-6286. [PMID: 36420164 PMCID: PMC9678802 DOI: 10.1016/j.csbj.2022.11.012] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2022] [Revised: 11/05/2022] [Accepted: 11/05/2022] [Indexed: 11/13/2022]  Open
5
Zhang X, Liu Y, Wang Y, Zhang L, Feng L, Jin B, Zhang H. Multistage Combination Classifier Augmented Model for Protein Secondary Structure Prediction. Front Genet 2022;13:769828. [PMID: 35677562 PMCID: PMC9170271 DOI: 10.3389/fgene.2022.769828] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/02/2021] [Accepted: 01/25/2022] [Indexed: 11/13/2022]  Open
6
Goodswen SJ, Kennedy PJ, Ellis JT. Predicting Protein Therapeutic Candidates for Bovine Babesiosis Using Secondary Structure Properties and Machine Learning. Front Genet 2021;12:716132. [PMID: 34367264 PMCID: PMC8343536 DOI: 10.3389/fgene.2021.716132] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/28/2021] [Accepted: 06/28/2021] [Indexed: 12/02/2022]  Open
7
Xu Y, Cheng J. Secondary structure prediction of protein based on multi scale convolutional attention neural networks. MATHEMATICAL BIOSCIENCES AND ENGINEERING : MBE 2021;18:3404-3422. [PMID: 34198392 DOI: 10.3934/mbe.2021170] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
8
Bokor M, Tantos Á. Secondary Structures of Proteins: A Comparison of Models and Experimental Results. J Proteome Res 2021;20:1802-1808. [PMID: 33620224 PMCID: PMC8028322 DOI: 10.1021/acs.jproteome.0c00986] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
9
Uddin MR, Mahbub S, Rahman MS, Bayzid MS. SAINT: self-attention augmented inception-inside-inception network improves protein secondary structure prediction. Bioinformatics 2021;36:4599-4608. [PMID: 32437517 DOI: 10.1093/bioinformatics/btaa531] [Citation(s) in RCA: 39] [Impact Index Per Article: 9.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/07/2019] [Revised: 05/10/2020] [Accepted: 05/16/2020] [Indexed: 11/12/2022]  Open
10
Liu Z, Gong Y, Bao Y, Guo Y, Wang H, Lin GN. TMPSS: A Deep Learning-Based Predictor for Secondary Structure and Topology Structure Prediction of Alpha-Helical Transmembrane Proteins. Front Bioeng Biotechnol 2021;8:629937. [PMID: 33569377 PMCID: PMC7869861 DOI: 10.3389/fbioe.2020.629937] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2020] [Accepted: 12/10/2020] [Indexed: 11/13/2022]  Open
11
Torrisi M, Pollastri G. Brewery: deep learning and deeper profiles for the prediction of 1D protein structure annotations. Bioinformatics 2020;36:3897-3898. [PMID: 32207516 DOI: 10.1093/bioinformatics/btaa204] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2020] [Revised: 03/17/2020] [Accepted: 03/19/2020] [Indexed: 11/13/2022]  Open
12
Guo Z, Hou J, Cheng J. DNSS2: Improved ab initio protein secondary structure prediction using advanced deep learning architectures. Proteins 2020;89:207-217. [PMID: 32893403 DOI: 10.1002/prot.26007] [Citation(s) in RCA: 20] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2020] [Revised: 07/07/2020] [Accepted: 09/02/2020] [Indexed: 12/27/2022]
13
Shi Q, Chen W, Huang S, Wang Y, Xue Z. Deep learning for mining protein data. Brief Bioinform 2019;22:194-218. [PMID: 31867611 DOI: 10.1093/bib/bbz156] [Citation(s) in RCA: 36] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2019] [Revised: 10/21/2019] [Accepted: 11/07/2019] [Indexed: 01/16/2023]  Open
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